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Table 1 Consistency of information across SNP chip and assemblies

From: SNPchiMp: a database to disentangle the SNPchip jungle in bovine livestock

      rs IDs without map informatione
SNPchip Totala no rs IDb rsID ×2c rsID ×3d BTAU4.2 UMD3.1 BTAU4.6
Bovine3kf 2,900 14 0 0 17 5 20
BovineLDg 6,909 3 0 1 94 14 111
BovineSNP50v.1h 54,001 0 29 0 1,970 204 1,852
BovineSNP50v.2i 54,609 18 29 0 2,154 340 2,031
BovineHDj 777,962 13 96 5 72,014 3,338 64,528
Axiom BOS 1k 648,875 288,601 1 0 130,618 0 16,207
  1. aTotal number of SNPs/SNP probes within chip not considering cross-references of SNP IDs.
  2. bTotal number of SNPs without SNP ID – rs ID association.
  3. cTotal number of SNPs with two different SNP IDs and same rs ID.
  4. dTotal number of SNPs with three different SNP IDs and same rs ID.
  5. eTotal number of SNPs whose rs ID is not mapped in the correspondent assembly (coded as chromosome 99 and position 0 in the SNPchiMp database).
  6. fIllumina Golden Gate Bovine3K BeadChip.
  7. gIllumina Infinium BovineLD BeadChip.
  8. hIllumina Infinium BovineSNP50 v.1 BeadChip.
  9. iIllumina Infinium BovineSNP50 v.2 BeadChip.
  10. jIllumina Infinium BovineHD BeadChip.
  11. kAffymetrix Axiom Genome-Wide BOS 1.